Results
Contents
Results¶
Data associated with the results presented here can be found at: https://github.com/courtois-neuromod/anat-processing/releases.
Brain¶
This section presents results of brain MRI data. Below are quantitative T1 values computed using the MP2RAGE and the MTsat methods. These values are averaged within the gray matter and white matter masks.
Gray matter qMRI¶
Code imports¶
# Python imports
from IPython.display import clear_output
from pathlib import Path
import numpy as np
import pandas as pd
# Import custom tools
from tools.data import Data
from tools.plot import Plot
Download data¶
data_type = 'brain'
release_version = 'latest'
dataset = Data(data_type)
dataset.download(release_version)
Load data and plot it¶
dataset.load()
fig_gm = Plot(dataset, plot_name = 'new-fig-2')
fig_gm.title = 'Brain gray matter qMRI microstructure'
# If you're running this notebook in a Jupyter Notebook (eg, on MyBinder), change 'jupyter-book' to 'notebook'
fig_gm.display('jupyter-book', tissue = 'GM')
White matter qMRI¶
fig_wm = Plot(dataset, plot_name = 'new-fig-4')
fig_wm.title = 'Brain white matter qMRI microstructure'
# If you're running this notebook in a Jupyter Notebook (eg, on MyBinder), change 'jupyter-book' to 'notebook'
fig_wm.display('jupyter-book', tissue = 'WM')
Spinal cord¶
Spinal cord cross-sectional area¶
Download data¶
data_type = 'spine'
release_version = 'latest'
dataset = Data(data_type)
dataset.download(release_version)
Load data plot it¶
dataset.load()
fig_spine = Plot(dataset, plot_name = 'new-fig')
fig_spine.title = 'Spinal cord CSA [T<sub>1</sub>w/T<sub>2</sub>w]'
# If you're running this notebook in a Jupyter Notebook (eg, on MyBinder), change 'jupyter-book' to 'notebook'
fig_spine.display('jupyter-book', tissue = 'WM')